Package picard.sam.markduplicates.util
Class PhysicalLocationForMateCigar
- java.lang.Object
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- picard.sam.util.PhysicalLocationInt
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- picard.sam.util.PhysicalLocationShort
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- picard.sam.markduplicates.util.PhysicalLocationForMateCigar
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- All Implemented Interfaces:
Serializable
,PhysicalLocation
public class PhysicalLocationForMateCigar extends PhysicalLocationShort
Stores the minimal information needed for optical duplicate detection.- See Also:
- Serialized Form
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Field Summary
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Fields inherited from class picard.sam.util.PhysicalLocationInt
tile, x, y
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Fields inherited from interface picard.sam.util.PhysicalLocation
NO_VALUE
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Constructor Summary
Constructors Constructor Description PhysicalLocationForMateCigar(PhysicalLocation rec)
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Method Summary
All Methods Instance Methods Concrete Methods Modifier and Type Method Description boolean
equals(Object other)
short
getLibraryId()
short
getReadGroup()
int
hashCode()
void
setLibraryId(short libraryId)
void
setReadGroup(short rg)
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Methods inherited from class picard.sam.util.PhysicalLocationShort
setX, setY
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Methods inherited from class picard.sam.util.PhysicalLocationInt
getTile, getX, getY, setTile
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Methods inherited from class java.lang.Object
clone, finalize, getClass, notify, notifyAll, toString, wait, wait, wait
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Methods inherited from interface picard.sam.util.PhysicalLocation
hasLocation
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Constructor Detail
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PhysicalLocationForMateCigar
public PhysicalLocationForMateCigar(PhysicalLocation rec)
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Method Detail
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getReadGroup
public short getReadGroup()
- Specified by:
getReadGroup
in interfacePhysicalLocation
- Overrides:
getReadGroup
in classPhysicalLocationInt
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setReadGroup
public void setReadGroup(short rg)
- Specified by:
setReadGroup
in interfacePhysicalLocation
- Overrides:
setReadGroup
in classPhysicalLocationInt
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getLibraryId
public short getLibraryId()
- Specified by:
getLibraryId
in interfacePhysicalLocation
- Overrides:
getLibraryId
in classPhysicalLocationInt
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setLibraryId
public void setLibraryId(short libraryId)
- Specified by:
setLibraryId
in interfacePhysicalLocation
- Overrides:
setLibraryId
in classPhysicalLocationInt
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